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Q5DYV8

- DEOD3_VIBF1

UniProt

Q5DYV8 - DEOD3_VIBF1

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Protein

Purine nucleoside phosphorylase DeoD-type

Gene

deoD3

Organism
Vibrio fischeri (strain ATCC 700601 / ES114)
Status
Reviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli

Functioni

Catalytic activityi

Purine nucleoside + phosphate = purine + alpha-D-ribose 1-phosphate.UniRule annotation
Purine deoxynucleoside + phosphate = purine + 2'-deoxy-alpha-D-ribose 1-phosphate.UniRule annotation

GO - Molecular functioni

  1. purine-nucleoside phosphorylase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. purine nucleoside metabolic process Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Glycosyltransferase, Transferase

Enzyme and pathway databases

BioCyciAFIS312309:GIWP-3726-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Purine nucleoside phosphorylase DeoD-typeUniRule annotation (EC:2.4.2.1UniRule annotation)
Short name:
PNPUniRule annotation
Gene namesi
Name:deoD3UniRule annotation
Ordered Locus Names:VF_A0968
OrganismiVibrio fischeri (strain ATCC 700601 / ES114)
Taxonomic identifieri312309 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeAliivibrio
ProteomesiUP000000537: Chromosome II

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 239239Purine nucleoside phosphorylase DeoD-typePRO_0000063173Add
BLAST

Interactioni

Subunit structurei

Homohexamer.UniRule annotation

Protein-protein interaction databases

STRINGi312309.VF_A0968.

Structurei

Secondary structure

1
239
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi15 – 195
Helixi23 – 3311
Beta strandi35 – 417
Helixi43 – 453
Beta strandi48 – 536
Beta strandi56 – 616
Helixi67 – 7812
Turni79 – 813
Beta strandi85 – 9410
Beta strandi104 – 1129
Helixi116 – 1205
Turni121 – 1233
Helixi132 – 14312
Beta strandi149 – 1568
Helixi166 – 1738
Beta strandi178 – 1825
Helixi183 – 19311
Beta strandi196 – 20611
Turni207 – 2104
Helixi215 – 23521

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4LDNX-ray1.48A1-239[»]
ProteinModelPortaliQ5DYV8.
SMRiQ5DYV8. Positions 2-235.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the PNP/UDP phosphorylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0813.
HOGENOMiHOG000274896.
KOiK03784.
OMAiFALGWMR.
OrthoDBiEOG6BKJC5.

Family and domain databases

Gene3Di3.40.50.1580. 1 hit.
HAMAPiMF_01627. Pur_nucleosid_phosp.
InterProiIPR004402. DeoD-type.
IPR018017. Nucleoside_phosphorylase.
IPR018016. Nucleoside_phosphorylase_CS.
IPR000845. Nucleoside_phosphorylase_d.
[Graphical view]
PANTHERiPTHR21234. PTHR21234. 1 hit.
PfamiPF01048. PNP_UDP_1. 1 hit.
[Graphical view]
SUPFAMiSSF53167. SSF53167. 1 hit.
TIGRFAMsiTIGR00107. deoD. 1 hit.
PROSITEiPS01232. PNP_UDP_1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5DYV8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSTPHINAPL DAFADTILMP GDPLRAKLIA ETYLENVVQV TDVRGMLGFT
60 70 80 90 100
GEFKGRKISV MGHGMGAPSA SIYFHELMTT YKVKNFIRIG SCGAIHDDVK
110 120 130 140 150
LKDLIVAIGA STDSKMNRIR FKDNDFAATA NYNMLSECVN TLKTTDINYL
160 170 180 190 200
VGNVFSSDLF YRPDEEQYDM MARYGILGVE MEVNALYSAA AENHCNAVAL
210 220 230
CTVTDHIKNH EHLTADERRT ELHEMINVAL DVALKLPTE
Length:239
Mass (Da):26,542
Last modified:March 15, 2005 - v1
Checksum:i0B35489AA6A19951
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000021 Genomic DNA. Translation: AAW88038.1.
RefSeqiYP_206926.1. NC_006841.2.

Genome annotation databases

EnsemblBacteriaiAAW88038; AAW88038; VF_A0968.
GeneIDi3280781.
KEGGivfi:VF_A0968.
PATRICi20117931. VBIVibFis127983_3569.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000021 Genomic DNA. Translation: AAW88038.1 .
RefSeqi YP_206926.1. NC_006841.2.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4LDN X-ray 1.48 A 1-239 [» ]
ProteinModelPortali Q5DYV8.
SMRi Q5DYV8. Positions 2-235.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 312309.VF_A0968.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAW88038 ; AAW88038 ; VF_A0968 .
GeneIDi 3280781.
KEGGi vfi:VF_A0968.
PATRICi 20117931. VBIVibFis127983_3569.

Phylogenomic databases

eggNOGi COG0813.
HOGENOMi HOG000274896.
KOi K03784.
OMAi FALGWMR.
OrthoDBi EOG6BKJC5.

Enzyme and pathway databases

BioCyci AFIS312309:GIWP-3726-MONOMER.

Family and domain databases

Gene3Di 3.40.50.1580. 1 hit.
HAMAPi MF_01627. Pur_nucleosid_phosp.
InterProi IPR004402. DeoD-type.
IPR018017. Nucleoside_phosphorylase.
IPR018016. Nucleoside_phosphorylase_CS.
IPR000845. Nucleoside_phosphorylase_d.
[Graphical view ]
PANTHERi PTHR21234. PTHR21234. 1 hit.
Pfami PF01048. PNP_UDP_1. 1 hit.
[Graphical view ]
SUPFAMi SSF53167. SSF53167. 1 hit.
TIGRFAMsi TIGR00107. deoD. 1 hit.
PROSITEi PS01232. PNP_UDP_1. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700601 / ES114.

Entry informationi

Entry nameiDEOD3_VIBF1
AccessioniPrimary (citable) accession number: Q5DYV8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: March 15, 2005
Last modified: October 1, 2014
This is version 58 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3